Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 127 of 235
Found at i:43058605 original size:11 final size:11
Alignment explanation
Indices: 43058589--43058615 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
43058579 CCCGGCGACA
43058589 TGATTTTATTT
1 TGATTTTATTT
43058600 TGATTTTATTT
1 TGATTTTATTT
43058611 TGATT
1 TGATT
43058616 GATATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.70
Consensus pattern (11 bp):
TGATTTTATTT
Found at i:43059162 original size:2 final size:2
Alignment explanation
Indices: 43059155--43059183 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
43059145 TCTATCTATC
43059155 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43059184 TAATTTTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43061439 original size:8 final size:8
Alignment explanation
Indices: 43061426--43061461 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
43061416 TGGTAGAATA
43061426 AAAAAATT
1 AAAAAATT
43061434 AAAAAATT
1 AAAAAATT
43061442 AAAAAATT
1 AAAAAATT
43061450 AAAAAATT
1 AAAAAATT
43061458 AAAA
1 AAAA
43061462 GAGTAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAAAATT
Found at i:43061471 original size:16 final size:16
Alignment explanation
Indices: 43061436--43061488 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
43061426 AAAAAATTAA
* * *
43061436 AAAATTAAAAAATTAA
1 AAAATTAAAAGAGTAG
43061452 AAAATTAAAAGAGTAG
1 AAAATTAAAAGAGTAG
*
43061468 AAAAATAAAAG-GATAG
1 AAAATTAAAAGAG-TAG
43061484 AAAAT
1 AAAAT
43061489 ATCATTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 1 0.03
16 30 0.97
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (16 bp):
AAAATTAAAAGAGTAG
Found at i:43061471 original size:24 final size:24
Alignment explanation
Indices: 43061426--43061477 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
43061416 TGGTAGAATA
* *
43061426 AAAAAATTAAAAAATTAAAAAATT
1 AAAAAATTAAAAAAGTAAAAAAAT
* *
43061450 AAAAAATTAAAAGAGTAGAAAAAT
1 AAAAAATTAAAAAAGTAAAAAAAT
43061474 AAAA
1 AAAA
43061478 GGATAGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (24 bp):
AAAAAATTAAAAAAGTAAAAAAAT
Found at i:43062985 original size:3 final size:3
Alignment explanation
Indices: 43062979--43063016 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
43062969 ATGATGATGA
43062979 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
43063017 ATGATGATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.66, T:0.34
Consensus pattern (3 bp):
TGG
Found at i:43063746 original size:20 final size:21
Alignment explanation
Indices: 43063710--43063749 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
43063700 TAGATTTTAA
*
43063710 TTTTAATATATATATTATATT
1 TTTTAAAATATATATTATATT
43063731 TTTTAAAATATA-ATTATAT
1 TTTTAAAATATATATTATAT
43063750 GTTATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTAAAATATATATTATATT
Found at i:43063757 original size:23 final size:22
Alignment explanation
Indices: 43063709--43063758 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
43063699 ATAGATTTTA
*
43063709 ATTTTAATATATATATTATATT
1 ATTTTAAAATATATATTATATT
43063731 -TTTTAAAATATA-ATTATATGTT
1 ATTTTAAAATATATATTATA--TT
43063753 ATTTTA
1 ATTTTA
43063759 TTAATTTCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 6 0.25
21 11 0.46
22 2 0.08
23 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTAAAATATATATTATATT
Found at i:43064403 original size:28 final size:28
Alignment explanation
Indices: 43064371--43064428 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
43064361 AATTGTTGGA
43064371 GATGACTTAAGTTGTCTTTGAATCTATT
1 GATGACTTAAGTTGTCTTTGAATCTATT
*
43064399 GATGACTTAAGTTGTCTTTGAATTTATT
1 GATGACTTAAGTTGTCTTTGAATCTATT
43064427 GA
1 GA
43064429 GGACGATTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.47
Consensus pattern (28 bp):
GATGACTTAAGTTGTCTTTGAATCTATT
Found at i:43064829 original size:43 final size:43
Alignment explanation
Indices: 43064766--43064852 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
43064756 TAGCACTTAA
*
43064766 CAGTAAAAATGAATGGAATTTTTAACAGAAAAACTAATTTGAT
1 CAGTAAAAATGAATGAAATTTTTAACAGAAAAACTAATTTGAT
*
43064809 CAGTAAAAATGGATGAAATTTTTAACAGAAAAACTAATTTGAT
1 CAGTAAAAATGAATGAAATTTTTAACAGAAAAACTAATTTGAT
43064852 C
1 C
43064853 TTTAATTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.48, C:0.08, G:0.14, T:0.30
Consensus pattern (43 bp):
CAGTAAAAATGAATGAAATTTTTAACAGAAAAACTAATTTGAT
Found at i:43070160 original size:53 final size:53
Alignment explanation
Indices: 43070004--43070169 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
43069994 GACGAAAAAT
* **
43070004 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
43070056 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
43070109 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
43070163 TATGTGA
1 -ATGTGA
43070170 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:43079042 original size:48 final size:48
Alignment explanation
Indices: 43078967--43079170 Score: 203
Period size: 48 Copynumber: 4.2 Consensus size: 48
43078957 CACATTATTT
* * **
43078967 ATCCACAACGTATTTTAGTCGACAGTTTATTTGCTGGACCAATGGTTC
1 ATCCAAAACGTATTTTAGTCGACAGTTTATCTGCACGACCAATGGTTC
* ** * * *
43079015 ATCCAAAATGTATTTTAGTCGGGAGTTTATCTGCACGACTAGTTGTTC
1 ATCCAAAACGTATTTTAGTCGACAGTTTATCTGCACGACCAATGGTTC
* * *
43079063 ATCCAAAACGTATCTTAGTCGATAGTTAATCTGCACGACCAATGGTTC
1 ATCCAAAACGTATTTTAGTCGACAGTTTATCTGCACGACCAATGGTTC
* * * * * * *
43079111 GTCCAAAACATATCTTAGTTGGA-ATTTTATCTACACGACCAGTGGTTC
1 ATCCAAAACGTATTTTAG-TCGACAGTTTATCTGCACGACCAATGGTTC
*
43079159 ATCCACAACGTA
1 ATCCAAAACGTA
43079171 CTAGCAGCTT
Statistics
Matches: 127, Mismatches: 28, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
48 124 0.98
49 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (48 bp):
ATCCAAAACGTATTTTAGTCGACAGTTTATCTGCACGACCAATGGTTC
Found at i:43079140 original size:96 final size:96
Alignment explanation
Indices: 43078967--43079170 Score: 255
Period size: 96 Copynumber: 2.1 Consensus size: 96
43078957 CACATTATTT
* * * ** ** *
43078967 ATCCACAACGTATTTTAGTCGACAGTTTATTTGCTGGACCAATGGTTCATCCAAAATGTATTTTA
1 ATCCACAACGTATCTTAGTCGACAGTTAATCTGCACGACCAATGGTTCATCCAAAACATATCTTA
* * * *
43079032 GTCGGGAGTTTATCTGCACGACTAGTTGTTC
66 GTCGGAAGTTTATCTACACGACCAGTGGTTC
* * *
43079063 ATCCAAAACGTATCTTAGTCGATAGTTAATCTGCACGACCAATGGTTCGTCCAAAACATATCTTA
1 ATCCACAACGTATCTTAGTCGACAGTTAATCTGCACGACCAATGGTTCATCCAAAACATATCTTA
* *
43079128 GTTGGAATTTTATCTACACGACCAGTGGTTC
66 GTCGGAAGTTTATCTACACGACCAGTGGTTC
43079159 ATCCACAACGTA
1 ATCCACAACGTA
43079171 CTAGCAGCTT
Statistics
Matches: 90, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
96 90 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (96 bp):
ATCCACAACGTATCTTAGTCGACAGTTAATCTGCACGACCAATGGTTCATCCAAAACATATCTTA
GTCGGAAGTTTATCTACACGACCAGTGGTTC
Found at i:43079870 original size:55 final size:55
Alignment explanation
Indices: 43079811--43079931 Score: 161
Period size: 55 Copynumber: 2.2 Consensus size: 55
43079801 TCCATTCGCA
* * * * *
43079811 TGAGTATTTGAAATAAGGCCACACGGCCGTGTCATAGGTCGTGTGTCCACCCGTG
1 TGAGTATTCGAAATAAGGCCACACGGCCGCGTCATAGGTCATGTGTCAAACCGTG
* *
43079866 TGAGTATTCGAAATAGGGCCACACTGCCGCGTCATAGGTCATGTGTCAAACCGTG
1 TGAGTATTCGAAATAAGGCCACACGGCCGCGTCATAGGTCATGTGTCAAACCGTG
* *
43079921 TGTGCATTCGA
1 TGAGTATTCGA
43079932 TGTTGGGTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (55 bp):
TGAGTATTCGAAATAAGGCCACACGGCCGCGTCATAGGTCATGTGTCAAACCGTG
Found at i:43081223 original size:24 final size:24
Alignment explanation
Indices: 43081191--43081260 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
43081181 TGAGAAACCA
* * *
43081191 ACCTTTTCATTGCTATTCTTTTTG
1 ACCTTTTCATTGATATCCTTTTCG
43081215 ACCTTTTCATTGATATCCTTTTCG
1 ACCTTTTCATTGATATCCTTTTCG
43081239 ACCTTTTCATTAGATA-CCTTTT
1 ACCTTTTCATT-GATATCCTTTT
43081261 TCAGATAACA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
24 38 0.90
25 4 0.10
ACGTcount: A:0.17, C:0.23, G:0.07, T:0.53
Consensus pattern (24 bp):
ACCTTTTCATTGATATCCTTTTCG
Found at i:43086551 original size:45 final size:45
Alignment explanation
Indices: 43086406--43086537 Score: 192
Period size: 45 Copynumber: 2.9 Consensus size: 45
43086396 CACAACATAT
* * * * *
43086406 TTGCAGATTAAAGTTGCTAGTATGGTGTGGATAGACCACTCATTG
1 TTGCAAATAAAAGTTGCTAATACGGTGTGGATAAACCACTCATTG
* *
43086451 TTGCAAATAAAAGTTGCTAATACGGTGTGGATAAACCACTTATTA
1 TTGCAAATAAAAGTTGCTAATACGGTGTGGATAAACCACTCATTG
*
43086496 TTGCAAATAAAAGTTGCTAATACAGTGTGGATAAACCACTCA
1 TTGCAAATAAAAGTTGCTAATACGGTGTGGATAAACCACTCA
43086538 GTGGTTTAGA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 78 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.30
Consensus pattern (45 bp):
TTGCAAATAAAAGTTGCTAATACGGTGTGGATAAACCACTCATTG
Found at i:43089207 original size:122 final size:123
Alignment explanation
Indices: 43088989--43089233 Score: 440
Period size: 122 Copynumber: 2.0 Consensus size: 123
43088979 TATGTAAGAA
*
43088989 CATTAGGAACTTTGAAGTAACATCTTTCCACGTCCTAGCCAGCTGAAACAAATTAAGAAAAAACC
1 CATTAGGAACTTTGAACTAACATCTTTCCACGTCCTAGCCAGCTGAAACAAATTAAGAAAAAACC
*
43089054 TAATCAGGTTGATGAACTAGTGGAGAGCCAATTATTGGCTGAAAGACTAGTCAATTAT
66 TAATCAGGTTGATGAACTAGTGGAGAGCCAATCATTGGCTGAAAGACTAGTCAATTAT
43089112 CATTAGGAACTTTGAACTAACATCTTTCCACGTCCTAG-CAGCTGAAACAAATTAAG-AAAAACA
1 CATTAGGAACTTTGAACTAACATCTTTCCACGTCCTAGCCAGCTGAAACAAATTAAGAAAAAAC-
*
43089175 CTAATCAGGTTGATGAACTCGTGGAGAGCCAATCATTGGCTGAAAGACTAGTCAATTAT
65 CTAATCAGGTTGATGAACTAGTGGAGAGCCAATCATTGGCTGAAAGACTAGTCAATTAT
43089234 GCTTTACTCT
Statistics
Matches: 118, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
121 6 0.05
122 75 0.64
123 37 0.31
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (123 bp):
CATTAGGAACTTTGAACTAACATCTTTCCACGTCCTAGCCAGCTGAAACAAATTAAGAAAAAACC
TAATCAGGTTGATGAACTAGTGGAGAGCCAATCATTGGCTGAAAGACTAGTCAATTAT
Found at i:43097934 original size:113 final size:113
Alignment explanation
Indices: 43097811--43098027 Score: 407
Period size: 113 Copynumber: 1.9 Consensus size: 113
43097801 ATGATTTAAG
*
43097811 GAAAAAAAATGGTAAAAGAGTGAAAAAAATCAACTTGGAGGCTAAGAAACAAGTCTCTCGCACCA
1 GAAAAAAAATGGTAAAAGAGTGAAAAAAATCAACTTGGAAGCTAAGAAACAAGTCTCTCGCACCA
*
43097876 AGGGAAACTTTGAGCTTGCAAAGACGAGAAGAAAAAAGGTAAAAGAGT
66 AGGGAAACTTTAAGCTTGCAAAGACGAGAAGAAAAAAGGTAAAAGAGT
43097924 GAAAAAAAATGGTAAAAGAGTGAAAAAAATCAACTTGGAAGCTAAGAAACAAGTCTCTCGCACCA
1 GAAAAAAAATGGTAAAAGAGTGAAAAAAATCAACTTGGAAGCTAAGAAACAAGTCTCTCGCACCA
*
43097989 AGGGGAACTTTAAGCTTGCAAAGACGAGAAGAAAAAAGG
66 AGGGAAACTTTAAGCTTGCAAAGACGAGAAGAAAAAAGG
43098028 ATTTGGAGAG
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 101 1.00
ACGTcount: A:0.49, C:0.13, G:0.24, T:0.15
Consensus pattern (113 bp):
GAAAAAAAATGGTAAAAGAGTGAAAAAAATCAACTTGGAAGCTAAGAAACAAGTCTCTCGCACCA
AGGGAAACTTTAAGCTTGCAAAGACGAGAAGAAAAAAGGTAAAAGAGT
Found at i:43097953 original size:20 final size:21
Alignment explanation
Indices: 43097907--43097952 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
43097897 AGACGAGAAG
43097907 AAAAAA-GGTAAAAGAGTGAA
1 AAAAAATGGTAAAAGAGTGAA
43097927 AAAAAATGGTAAAAGAGTGAA
1 AAAAAATGGTAAAAGAGTGAA
43097948 AAAAA
1 AAAAA
43097953 TCAACTTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.67, C:0.00, G:0.22, T:0.11
Consensus pattern (21 bp):
AAAAAATGGTAAAAGAGTGAA
Found at i:43104817 original size:15 final size:15
Alignment explanation
Indices: 43104799--43104847 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
43104789 TTTATTAAAA
43104799 AATTTATATTTAATT
1 AATTTATATTTAATT
*
43104814 AATTTATATTTATTTT
1 AATTTATATTTA-ATT
*
43104830 AA-TTATA-TTAAAT
1 AATTTATATTTAATT
43104843 AATTT
1 AATTT
43104848 TTTATACAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 3 0.10
14 5 0.17
15 17 0.59
16 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTATATTTAATT
Found at i:43110859 original size:83 final size:83
Alignment explanation
Indices: 43110741--43110975 Score: 470
Period size: 83 Copynumber: 2.8 Consensus size: 83
43110731 CTTGCAGGTT
43110741 ATGTTAATTGGACTTGGGTGTGAGTGTCCAATGTATCTGGTTAGATGTTATATATTTGGATGATC
1 ATGTTAATTGGACTTGGGTGTGAGTGTCCAATGTATCTGGTTAGATGTTATATATTTGGATGATC
43110806 TTTGGATGTTATATTTTC
66 TTTGGATGTTATATTTTC
43110824 ATGTTAATTGGACTTGGGTGTGAGTGTCCAATGTATCTGGTTAGATGTTATATATTTGGATGATC
1 ATGTTAATTGGACTTGGGTGTGAGTGTCCAATGTATCTGGTTAGATGTTATATATTTGGATGATC
43110889 TTTGGATGTTATATTTTC
66 TTTGGATGTTATATTTTC
43110907 ATGTTAATTGGACTTGGGTGTGAGTGTCCAATGTATCTGGTTAGATGTTATATATTTGGATGATC
1 ATGTTAATTGGACTTGGGTGTGAGTGTCCAATGTATCTGGTTAGATGTTATATATTTGGATGATC
43110972 TTTG
66 TTTG
43110976 ACAACCCGAA
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 152 1.00
ACGTcount: A:0.22, C:0.07, G:0.26, T:0.45
Consensus pattern (83 bp):
ATGTTAATTGGACTTGGGTGTGAGTGTCCAATGTATCTGGTTAGATGTTATATATTTGGATGATC
TTTGGATGTTATATTTTC
Found at i:43122326 original size:20 final size:21
Alignment explanation
Indices: 43122297--43122337 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
43122287 TATAGTTTAA
43122297 TTAAATAAATTATTT-AAAAAT
1 TTAAATAAATT-TTTGAAAAAT
43122318 TTAAA-AAATTTTTGAAAAAT
1 TTAAATAAATTTTTGAAAAAT
43122338 AATAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 11 0.58
21 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TTAAATAAATTTTTGAAAAAT
Found at i:43122346 original size:18 final size:18
Alignment explanation
Indices: 43122295--43122346 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
43122285 CATATAGTTT
43122295 AATTAAATAAATTATTTAAA
1 AATT-AATAAATT-TTTAAA
*
43122315 AATTTAAAAAATTTTTGAAA
1 AA-TTAATAAATTTTT-AAA
43122335 AA-TAATAAATTT
1 AATTAATAAATTT
43122347 AGTTGAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 9 0.32
19 3 0.11
20 14 0.50
21 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
AATTAATAAATTTTTAAA
Found at i:43126241 original size:14 final size:14
Alignment explanation
Indices: 43126222--43126249 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43126212 TCCTCTCTCT
43126222 ATATATATTTTTAA
1 ATATATATTTTTAA
43126236 ATATATATTTTTAA
1 ATATATATTTTTAA
43126250 TCCTAAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATATATTTTTAA
Found at i:43126429 original size:22 final size:23
Alignment explanation
Indices: 43126387--43126429 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
43126377 TTTTTATTTA
43126387 TTAAAATTTTATATATGTTCATC
1 TTAAAATTTTATATATGTTCATC
* *
43126410 TTAATATTTTTTA-ATGTTCA
1 TTAAAATTTTATATATGTTCA
43126430 CATTATAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (23 bp):
TTAAAATTTTATATATGTTCATC
Found at i:43126794 original size:25 final size:25
Alignment explanation
Indices: 43126747--43126794 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
43126737 CCTCTAAATT
* ***
43126747 TTAATATGTATATTTTTTTTGTGAA
1 TTAATACGTATATTTTAAATGTGAA
43126772 TTAATACGTATATTTTAAATGTG
1 TTAATACGTATATTTTAAATGTG
43126795 TATTTTAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.54
Consensus pattern (25 bp):
TTAATACGTATATTTTAAATGTGAA
Found at i:43127043 original size:6 final size:6
Alignment explanation
Indices: 43127032--43127090 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
43127022 GCCAAAAGTC
** * *
43127032 TATTTT TATTTT TAAAGTC TATTTT TATTTT TA-TTT TATTAT TATTTT
1 TATTTT TATTTT T-ATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
43127080 TATTTT T-TTTT
1 TATTTT TATTTT
43127091 ACATTCTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
5 9 0.21
6 31 0.72
7 3 0.07
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:43127050 original size:19 final size:19
Alignment explanation
Indices: 43127026--43127064 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
43127016 CACTAGGCCA
43127026 AAAGTCTATTTTTATTTTT
1 AAAGTCTATTTTTATTTTT
43127045 AAAGTCTATTTTTATTTTT
1 AAAGTCTATTTTTATTTTT
43127064 A
1 A
43127065 TTTTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
AAAGTCTATTTTTATTTTT
Found at i:43127070 original size:11 final size:11
Alignment explanation
Indices: 43127054--43127091 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
43127044 TAAAGTCTAT
43127054 TTTTATTTTTA
1 TTTTATTTTTA
*
43127065 TTTTATTATTA
1 TTTTATTTTTA
43127076 TTTTTATTTTT-
1 -TTTTATTTTTA
43127087 TTTTA
1 TTTTA
43127092 CATTCTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 5 0.21
11 10 0.42
12 9 0.38
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:43127076 original size:17 final size:17
Alignment explanation
Indices: 43127051--43127085 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
43127041 TTTTAAAGTC
*
43127051 TATTTTTATTTTTATTT
1 TATTATTATTTTTATTT
43127068 TATTATTATTTTTATTT
1 TATTATTATTTTTATTT
43127085 T
1 T
43127086 TTTTTACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (17 bp):
TATTATTATTTTTATTT
Found at i:43135795 original size:21 final size:19
Alignment explanation
Indices: 43135771--43135811 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
43135761 AAATGTATTC
43135771 ATGTTTAAATTATTGTAGATT
1 ATGTTTAAATTA-TGT-GATT
*
43135792 ATGTTTGAATTATGTGATT
1 ATGTTTAAATTATGTGATT
43135811 A
1 A
43135812 ATGAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 3 0.16
21 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (19 bp):
ATGTTTAAATTATGTGATT
Found at i:43139350 original size:20 final size:20
Alignment explanation
Indices: 43139327--43139364 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43139317 GTTATTAAAT
43139327 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
43139347 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
43139365 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:43140293 original size:22 final size:22
Alignment explanation
Indices: 43140268--43140310 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
43140258 ACATTACATG
*
43140268 TTATGTATCGAGGCAAGGTCTT
1 TTATGTATCGAGACAAGGTCTT
* *
43140290 TTATGTCTCGAGACTAGGTCT
1 TTATGTATCGAGACAAGGTCT
43140311 CAAGACCAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (22 bp):
TTATGTATCGAGACAAGGTCTT
Found at i:43143101 original size:21 final size:21
Alignment explanation
Indices: 43143075--43143116 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
43143065 AATTTGGTGC
43143075 TAATTAATAATCTATTAAAAA
1 TAATTAATAATCTATTAAAAA
43143096 TAATTAATAATCTATTAAAAA
1 TAATTAATAATCTATTAAAAA
43143117 GCATATATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATTAATAATCTATTAAAAA
Found at i:43146763 original size:47 final size:47
Alignment explanation
Indices: 43146712--43146802 Score: 164
Period size: 47 Copynumber: 1.9 Consensus size: 47
43146702 AAAGATGTTT
43146712 ATAAAAAAAATCGTCTTTCAATCCAATTCAACTGAAAAAAGGAGGTA
1 ATAAAAAAAATCGTCTTTCAATCCAATTCAACTGAAAAAAGGAGGTA
* *
43146759 ATAAAAAAAATCGTCTTTCGATCCAATTCAACTGAAGAAAGGAG
1 ATAAAAAAAATCGTCTTTCAATCCAATTCAACTGAAAAAAGGAG
43146803 ATTCAAACCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.23
Consensus pattern (47 bp):
ATAAAAAAAATCGTCTTTCAATCCAATTCAACTGAAAAAAGGAGGTA
Found at i:43155913 original size:51 final size:51
Alignment explanation
Indices: 43155858--43155988 Score: 154
Period size: 51 Copynumber: 2.6 Consensus size: 51
43155848 ATGATCTTGA
* * * *
43155858 AAGATATGATTTTATAATCTTTGAGATTTTAGATATGATATGTAATCTTAT
1 AAGATATGATTTTATAATCTTAGAGATTTTAGATAAGATAGGTAATCTTAG
* ** * * *
43155909 AAGATATTATTTTATAAGATTACATATCTTAGATAAGATAGGTAATCTTAG
1 AAGATATGATTTTATAATCTTAGAGATTTTAGATAAGATAGGTAATCTTAG
* *
43155960 AAGATATGATCTTATATTCTTAGAGATTT
1 AAGATATGATTTTATAATCTTAGAGATTT
43155989 GATTGTAGAT
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (51 bp):
AAGATATGATTTTATAATCTTAGAGATTTTAGATAAGATAGGTAATCTTAG
Found at i:43160946 original size:51 final size:51
Alignment explanation
Indices: 43160889--43161017 Score: 177
Period size: 51 Copynumber: 2.5 Consensus size: 51
43160879 ATGATCTTGA
* * *
43160889 AAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGTAATCTTAT
1 AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATAGGTAATCTTAG
* ** * *
43160940 AAGATATTATTTTATAAGATTACATATCTTAGATAAGATAGGTAATCTTAG
1 AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATAGGTAATCTTAG
*
43160991 AAGATATGATTTTATATTCTTAGAGAT
1 AAGATATGATTTTATAATCTTAGAGAT
43161018 TTGATTGTAG
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (51 bp):
AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATAGGTAATCTTAG
Found at i:43163639 original size:33 final size:34
Alignment explanation
Indices: 43163594--43163657 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
43163584 TTTTTTATAA
43163594 TTTTTATAATTTTATATATTATAA-TATTTTTGTT
1 TTTTTATAATTTTATAT-TTATAATTATTTTTGTT
*
43163628 TTTTTAT-ATTTTATATTTTTAATTATTTTT
1 TTTTTATAATTTTATATTTATAATTATTTTT
43163658 ATGGAGAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 5 0.18
33 16 0.57
34 7 0.25
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (34 bp):
TTTTTATAATTTTATATTTATAATTATTTTTGTT
Found at i:43163654 original size:17 final size:16
Alignment explanation
Indices: 43163586--43163656 Score: 54
Period size: 17 Copynumber: 4.2 Consensus size: 16
43163576 TATAAGTTTT
*
43163586 TTTTATAATTTTTATAA
1 TTTTAT-ATTTTTATTA
* *
43163603 TTTTATATATTATAATA
1 TTTTATAT-TTTTATTA
* *
43163620 TTTT-TGTTTTTTTATA
1 TTTTATATTTTTAT-TA
43163636 TTTTATATTTTTAATTA
1 TTTTATATTTTT-ATTA
43163653 TTTT
1 TTTT
43163657 TATGGAGAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
15 3 0.07
16 10 0.24
17 27 0.66
18 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.70
Consensus pattern (16 bp):
TTTTATATTTTTATTA
Found at i:43163656 original size:24 final size:23
Alignment explanation
Indices: 43163555--43163656 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 23
43163545 CATTTATTAG
* *
43163555 ATTTTCATATTTTATAGTATTTATA
1 ATTTT-ATATTTTATA-TTTTTATT
* *
43163580 AGTTT-T-TTTTATAATTTTTATA
1 ATTTTATATTTTAT-ATTTTTATT
*
43163602 ATTTTATATATTATAATATTTTTGTT
1 ATTTTATAT-TT-T-ATATTTTTATT
*
43163628 TTTTTATATTTTATATTTTTAATT
1 ATTTTATATTTTATATTTTT-ATT
43163652 ATTTT
1 ATTTT
43163657 TATGGAGAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
22 17 0.27
23 11 0.18
24 8 0.13
25 8 0.13
26 16 0.26
27 2 0.03
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (23 bp):
ATTTTATATTTTATATTTTTATT
Found at i:43165651 original size:16 final size:16
Alignment explanation
Indices: 43165620--43165656 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
43165610 ATGTGAATAA
43165620 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
43165636 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
43165652 TATTA
1 TATTA
43165657 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:43171934 original size:69 final size:69
Alignment explanation
Indices: 43171819--43171953 Score: 198
Period size: 69 Copynumber: 2.0 Consensus size: 69
43171809 GCAAAAGTAA
* *
43171819 TAGTTTTTGATGTATCAATCTATAGATAGACAAGTCAAATGCTAGTGTGAAAACAACTCTGATGT
1 TAGTTTTTGATGCATCAATCTATAGATAGAAAAGTCAAATGCTAGTGTGAAAACAACTCTGATGT
43171884 TGTT
66 TGTT
* * * ** *
43171888 TAGTTTTTGATGCATCAGTCTATCGATAGAAAAGTCAAATGTTAGTGTGCGAACAACTCTGCTGT
1 TAGTTTTTGATGCATCAATCTATAGATAGAAAAGTCAAATGCTAGTGTGAAAACAACTCTGATGT
43171953 T
66 T
43171954 TTAACCAGAG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (69 bp):
TAGTTTTTGATGCATCAATCTATAGATAGAAAAGTCAAATGCTAGTGTGAAAACAACTCTGATGT
TGTT
Found at i:43175731 original size:14 final size:14
Alignment explanation
Indices: 43175712--43175746 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
43175702 TGTATGAACT
43175712 TTTTATATTTTTAA
1 TTTTATATTTTTAA
* *
43175726 TTTTATTTTTTTAT
1 TTTTATATTTTTAA
43175740 TTTTATA
1 TTTTATA
43175747 AATTTTGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATATTTTTAA
Found at i:43176479 original size:5 final size:6
Alignment explanation
Indices: 43176466--43176500 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
43176456 ATAATTTAAT
43176466 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAA
43176501 AAACATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 21 0.78
8 6 0.22
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:43176488 original size:14 final size:14
Alignment explanation
Indices: 43176469--43176495 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43176459 ATTTAATAAA
43176469 TAAAAATAAAAATC
1 TAAAAATAAAAATC
43176483 TAAAAATAAAAAT
1 TAAAAATAAAAAT
43176496 AAAAAAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAAAATAAAAATC
Found at i:43176500 original size:21 final size:22
Alignment explanation
Indices: 43176443--43176501 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 22
43176433 CAACCCAATC
*
43176443 ATAAAAATTACAAATAATTTAATAA
1 ATAAAAA-TA-AAA-AATCTAATAA
43176468 ATAAAAAT-AAAAATCTAA-AA
1 ATAAAAATAAAAAATCTAATAA
43176488 ATAAAAATAAAAAA
1 ATAAAAATAAAAAA
43176502 AACATAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 10 0.31
21 11 0.34
22 3 0.09
24 1 0.03
25 7 0.22
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (22 bp):
ATAAAAATAAAAAATCTAATAA
Found at i:43176508 original size:11 final size:12
Alignment explanation
Indices: 43176466--43176500 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 12
43176456 ATAATTTAAT
43176466 AAATAAAAATAA
1 AAATAAAAATAA
43176478 AAATCTAAAAATAA
1 AAA--TAAAAATAA
43176492 AAATAAAAA
1 AAATAAAAA
43176501 AAACATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.43
14 12 0.57
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (12 bp):
AAATAAAAATAA
Found at i:43176558 original size:27 final size:27
Alignment explanation
Indices: 43176520--43176596 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
43176510 TTTATACAAA
*
43176520 TAATTC-AGTTAATTCGATTAATTAGGG
1 TAATTCGA-TTAATTCGGTTAATTAGGG
43176547 TAATTCGATTAATTCGGTTAATTAGGG
1 TAATTCGATTAATTCGGTTAATTAGGG
43176574 TAATTCGATTAATTCGGTTAATT
1 TAATTCGATTAATTCGGTTAATT
43176597 TTATATTTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
27 47 0.98
28 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (27 bp):
TAATTCGATTAATTCGGTTAATTAGGG
Found at i:43176568 original size:18 final size:18
Alignment explanation
Indices: 43176520--43176596 Score: 82
Period size: 18 Copynumber: 4.3 Consensus size: 18
43176510 TTTATACAAA
*
43176520 TAATTCAGTTAATTCGAT
1 TAATTCGGTTAATTCGAT
* *
43176538 TAATTAGGGTAATTCGAT
1 TAATTCGGTTAATTCGAT
* **
43176556 TAATTCGGTTAATTAGGG
1 TAATTCGGTTAATTCGAT
* *
43176574 TAATTCGATTAATTCGGT
1 TAATTCGGTTAATTCGAT
43176592 TAATT
1 TAATT
43176597 TTATATTTAT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (18 bp):
TAATTCGGTTAATTCGAT
Found at i:43185894 original size:3 final size:3
Alignment explanation
Indices: 43185886--43185924 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
43185876 GAGAAAATTT
43185886 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
43185925 AGAATTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:43192278 original size:22 final size:22
Alignment explanation
Indices: 43192253--43192294 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
43192243 TCCTTCAAAA
43192253 CAAAAATTT-TAATTTGTATCCT
1 CAAAAATTTATAATTT-TATCCT
*
43192275 CAAAATTTTATAATTTTATC
1 CAAAAATTTATAATTTTATC
43192295 TTAGTTCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (22 bp):
CAAAAATTTATAATTTTATCCT
Found at i:43196144 original size:16 final size:16
Alignment explanation
Indices: 43196123--43196154 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43196113 TTTGTTTTAA
43196123 TATAAATGAATCTATG
1 TATAAATGAATCTATG
*
43196139 TATAAATGTATCTATG
1 TATAAATGAATCTATG
43196155 CTATGATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (16 bp):
TATAAATGAATCTATG
Found at i:43197409 original size:12 final size:12
Alignment explanation
Indices: 43197392--43197418 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
43197382 GAGTTACATA
43197392 GCCTAGCACACG
1 GCCTAGCACACG
43197404 GCCTAGCACACG
1 GCCTAGCACACG
43197416 GCC
1 GCC
43197419 GTGTATGGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.44, G:0.26, T:0.07
Consensus pattern (12 bp):
GCCTAGCACACG
Found at i:43201137 original size:30 final size:30
Alignment explanation
Indices: 43201091--43201184 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
43201081 TTTTATTATG
*
43201091 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
43201122 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
43201152 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
43201182 CCA
1 CCA
43201185 TAAATATGGA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 53 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:43201146 original size:15 final size:15
Alignment explanation
Indices: 43201101--43201178 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
43201091 CCAATATCTC
43201101 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
43201116 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
43201131 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
43201146 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
43201161 GATACCCATATCTTT
1 GATACCCATATCTTT
43201176 GAT
1 GAT
43201179 TTTCCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:43205800 original size:30 final size:30
Alignment explanation
Indices: 43205754--43205877 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
43205744 TTTTATTATG
*
43205754 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
43205785 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
43205815 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
43205845 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
43205875 CCA
1 CCA
43205878 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:43205809 original size:15 final size:15
Alignment explanation
Indices: 43205764--43205871 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
43205754 CCAATATCTC
43205764 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
43205779 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
43205794 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
43205809 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
43205824 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
43205839 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
43205854 GATACCCATATCTTT
1 GATACCCATATCTTT
43205869 GAT
1 GAT
43205872 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:43206477 original size:5 final size:5
Alignment explanation
Indices: 43206469--43206499 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
43206459 AAAGTAAAGT
43206469 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
43206500 AGATGATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:43217230 original size:21 final size:20
Alignment explanation
Indices: 43217206--43217252 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
43217196 ACTTTTAAAA
43217206 CTTTAACTTTCTTTATATATT
1 CTTTAACTTTCTTTATA-ATT
* *
43217227 CTTTAGATTTTTTTTATAATT
1 CTTTA-ACTTTCTTTATAATT
43217248 -TTTAA
1 CTTTAA
43217253 AAGATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 8 0.35
22 10 0.43
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.64
Consensus pattern (20 bp):
CTTTAACTTTCTTTATAATT
Found at i:43223208 original size:34 final size:34
Alignment explanation
Indices: 43223165--43223232 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
43223155 AAATATAAGT
43223165 AAATAGAATTAATCTATTTAAGGGCATAAAAAGC
1 AAATAGAATTAATCTATTTAAGGGCATAAAAAGC
43223199 AAATAGAATTAATCTATTTAAGGGCATAAAAAGC
1 AAATAGAATTAATCTATTTAAGGGCATAAAAAGC
43223233 TAAGTCCACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (34 bp):
AAATAGAATTAATCTATTTAAGGGCATAAAAAGC
Found at i:43227608 original size:39 final size:38
Alignment explanation
Indices: 43227542--43227617 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
43227532 GGGGCCTCTG
43227542 TCTCTAAAAATAAAAAAATTTCCATTTAAATACTTTAAC
1 TCTCTAAAAATAAAAAAATTTCCATTT-AATACTTTAAC
* * *
43227581 TCTCTAAAAATGATAAAAATTT-GATTTAATCCTTTAA
1 TCTCTAAAAAT-AAAAAAATTTCCATTTAATACTTTAA
43227618 AATTTATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 9 0.27
39 15 0.45
40 9 0.27
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (38 bp):
TCTCTAAAAATAAAAAAATTTCCATTTAATACTTTAAC
Found at i:43235124 original size:25 final size:22
Alignment explanation
Indices: 43235095--43235141 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
43235085 CAATATTGTA
43235095 TTTATCATTTTTGTAATTTTATTAT
1 TTTATCA-TTTTG-AATTTT-TTAT
*
43235120 TTTATTATTTTGAATTTTTTAT
1 TTTATCATTTTGAATTTTTTAT
43235142 AATTATTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 6 0.29
24 5 0.24
25 6 0.29
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTATCATTTTGAATTTTTTAT
Found at i:43235147 original size:23 final size:24
Alignment explanation
Indices: 43235103--43235149 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
43235093 TATTTATCAT
*
43235103 TTTTGTAATTTTATTATTTTATTA
1 TTTTGTAATTTTATTATATTATTA
43235127 TTTTG-AATTTT-TTATAATTATTA
1 TTTTGTAATTTTATTAT-ATTATTA
43235150 AGTATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 12 0.57
24 5 0.24
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (24 bp):
TTTTGTAATTTTATTATATTATTA
Found at i:43238372 original size:32 final size:34
Alignment explanation
Indices: 43238308--43238373 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 34
43238298 AAGCCCGCCC
*
43238308 ATATTATTTTTAAATTTTTTTAAAAATATTATATT
1 ATATTATTTTTAAA-TTATTTAAAAATATTATATT
* *
43238343 ATATTATTTTT-AA-TATTTAATAATTTTATAT
1 ATATTATTTTTAAATTATTTAAAAATATTATAT
43238374 ATTTTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 15 0.54
34 2 0.07
35 11 0.39
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (34 bp):
ATATTATTTTTAAATTATTTAAAAATATTATATT
Found at i:43238380 original size:27 final size:28
Alignment explanation
Indices: 43238341--43238401 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
43238331 AAATATTATA
*
43238341 TTATAT-TATTTTTAA-TATTTAATAATT
1 TTATATATATTTTTAATTATTGAAT-ATT
*
43238368 TTATATAT-TTTTTAATTATTGAATTTT
1 TTATATATATTTTTAATTATTGAATATT
43238395 TTATATA
1 TTATATA
43238402 GTATCTTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 22 0.73
28 8 0.27
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (28 bp):
TTATATATATTTTTAATTATTGAATATT
Found at i:43242998 original size:970 final size:970
Alignment explanation
Indices: 43241118--43243057 Score: 3880
Period size: 970 Copynumber: 2.0 Consensus size: 970
43241108 TAAGTTTTTT
43241118 TGAAAGCTAATATGTTAAGTTAAAATATTACATTATAGTAATTTGAATTAAAAAAATATAAAAAA
1 TGAAAGCTAATATGTTAAGTTAAAATATTACATTATAGTAATTTGAATTAAAAAAATATAAAAAA
43241183 TTCAATAAAATGAAAGAATAAAACTGATCAAAATAAAGAAAAAGATAAAAAATATGATAAAATCA
66 TTCAATAAAATGAAAGAATAAAACTGATCAAAATAAAGAAAAAGATAAAAAATATGATAAAATCA
43241248 AGATTACCCCTGAGTTTATATTATTTAAGAAAAAAAATGATAAATCTTTGCGAGCCAAAGTGAGA
131 AGATTACCCCTGAGTTTATATTATTTAAGAAAAAAAATGATAAATCTTTGCGAGCCAAAGTGAGA
43241313 ACATTATTTGGTATGTGCAAACTTTACCTTACATATATTTCAAAACCTTGAATAATCTTCACAAA
196 ACATTATTTGGTATGTGCAAACTTTACCTTACATATATTTCAAAACCTTGAATAATCTTCACAAA
43241378 CTAAATGTGAGAAGGTTATGTTAGAAAATAAAATTACCGTTAAGAAATGCACTAAATTACGCTCC
261 CTAAATGTGAGAAGGTTATGTTAGAAAATAAAATTACCGTTAAGAAATGCACTAAATTACGCTCC
43241443 CCTAGTTCATACAGGAGACAGACAGTTGACCCATTTTACAGTCAATTTTGTTATTTTATCCACTG
326 CCTAGTTCATACAGGAGACAGACAGTTGACCCATTTTACAGTCAATTTTGTTATTTTATCCACTG
43241508 CACTGTCTTGTGCACACTGTTAGTTTCTGCAAAACAAATACCAATTTTAATAGTTACGAATAGCT
391 CACTGTCTTGTGCACACTGTTAGTTTCTGCAAAACAAATACCAATTTTAATAGTTACGAATAGCT
43241573 TGAAATGCCATGCCAAAATTGTAGTTATATATATATATATATGAAAGGTTTGTTCCTTTTGGCCC
456 TGAAATGCCATGCCAAAATTGTAGTTATATATATATATATATGAAAGGTTTGTTCCTTTTGGCCC
43241638 TAAGGCAGTAGTAACCCTTCTCTTTGACACTGACCCTCTCCATTTACATGTTTACGATTGTTACA
521 TAAGGCAGTAGTAACCCTTCTCTTTGACACTGACCCTCTCCATTTACATGTTTACGATTGTTACA
43241703 CATACAGAAGCACCAGAGTATTAGATCCTTCTCATATGTGCTCTCAAGCCAATCATAGGACCCCC
586 CATACAGAAGCACCAGAGTATTAGATCCTTCTCATATGTGCTCTCAAGCCAATCATAGGACCCCC
43241768 CATGGATATAGCATAGAAGTCAGAGTTCCATTGTTGCCCTCAGAACCCCTCTCTGTTCTTCAGAT
651 CATGGATATAGCATAGAAGTCAGAGTTCCATTGTTGCCCTCAGAACCCCTCTCTGTTCTTCAGAT
43241833 ATTGACATCCCAGATCAATATAATTGAGTCTTAACTTTCGACTGTCACGATCTTCAGAGTTCACG
716 ATTGACATCCCAGATCAATATAATTGAGTCTTAACTTTCGACTGTCACGATCTTCAGAGTTCACG
43241898 CGAATCTCAGCACTGCTATAGCCATCAATGTCGCGGCTCTGAAATAGATCTGATTAACACTTTTC
781 CGAATCTCAGCACTGCTATAGCCATCAATGTCGCGGCTCTGAAATAGATCTGATTAACACTTTTC
43241963 TCCACTCTCTCAATCATCTCCTCTTCCTTCAGACCGGACTTGCTAGTATTTTTGCTGATATGTAC
846 TCCACTCTCTCAATCATCTCCTCTTCCTTCAGACCGGACTTGCTAGTATTTTTGCTGATATGTAC
43242028 AACCGTGTCCCTCAATCGGTTAACTGCCCATGAGAGCCAAACTAGCCCAAAACCGATGCC
911 AACCGTGTCCCTCAATCGGTTAACTGCCCATGAGAGCCAAACTAGCCCAAAACCGATGCC
43242088 TGAAAGCTAATATGTTAAGTTAAAATATTACATTATAGTAATTTGAATTAAAAAAATATAAAAAA
1 TGAAAGCTAATATGTTAAGTTAAAATATTACATTATAGTAATTTGAATTAAAAAAATATAAAAAA
43242153 TTCAATAAAATGAAAGAATAAAACTGATCAAAATAAAGAAAAAGATAAAAAATATGATAAAATCA
66 TTCAATAAAATGAAAGAATAAAACTGATCAAAATAAAGAAAAAGATAAAAAATATGATAAAATCA
43242218 AGATTACCCCTGAGTTTATATTATTTAAGAAAAAAAATGATAAATCTTTGCGAGCCAAAGTGAGA
131 AGATTACCCCTGAGTTTATATTATTTAAGAAAAAAAATGATAAATCTTTGCGAGCCAAAGTGAGA
43242283 ACATTATTTGGTATGTGCAAACTTTACCTTACATATATTTCAAAACCTTGAATAATCTTCACAAA
196 ACATTATTTGGTATGTGCAAACTTTACCTTACATATATTTCAAAACCTTGAATAATCTTCACAAA
43242348 CTAAATGTGAGAAGGTTATGTTAGAAAATAAAATTACCGTTAAGAAATGCACTAAATTACGCTCC
261 CTAAATGTGAGAAGGTTATGTTAGAAAATAAAATTACCGTTAAGAAATGCACTAAATTACGCTCC
43242413 CCTAGTTCATACAGGAGACAGACAGTTGACCCATTTTACAGTCAATTTTGTTATTTTATCCACTG
326 CCTAGTTCATACAGGAGACAGACAGTTGACCCATTTTACAGTCAATTTTGTTATTTTATCCACTG
43242478 CACTGTCTTGTGCACACTGTTAGTTTCTGCAAAACAAATACCAATTTTAATAGTTACGAATAGCT
391 CACTGTCTTGTGCACACTGTTAGTTTCTGCAAAACAAATACCAATTTTAATAGTTACGAATAGCT
43242543 TGAAATGCCATGCCAAAATTGTAGTTATATATATATATATATGAAAGGTTTGTTCCTTTTGGCCC
456 TGAAATGCCATGCCAAAATTGTAGTTATATATATATATATATGAAAGGTTTGTTCCTTTTGGCCC
43242608 TAAGGCAGTAGTAACCCTTCTCTTTGACACTGACCCTCTCCATTTACATGTTTACGATTGTTACA
521 TAAGGCAGTAGTAACCCTTCTCTTTGACACTGACCCTCTCCATTTACATGTTTACGATTGTTACA
43242673 CATACAGAAGCACCAGAGTATTAGATCCTTCTCATATGTGCTCTCAAGCCAATCATAGGACCCCC
586 CATACAGAAGCACCAGAGTATTAGATCCTTCTCATATGTGCTCTCAAGCCAATCATAGGACCCCC
43242738 CATGGATATAGCATAGAAGTCAGAGTTCCATTGTTGCCCTCAGAACCCCTCTCTGTTCTTCAGAT
651 CATGGATATAGCATAGAAGTCAGAGTTCCATTGTTGCCCTCAGAACCCCTCTCTGTTCTTCAGAT
43242803 ATTGACATCCCAGATCAATATAATTGAGTCTTAACTTTCGACTGTCACGATCTTCAGAGTTCACG
716 ATTGACATCCCAGATCAATATAATTGAGTCTTAACTTTCGACTGTCACGATCTTCAGAGTTCACG
43242868 CGAATCTCAGCACTGCTATAGCCATCAATGTCGCGGCTCTGAAATAGATCTGATTAACACTTTTC
781 CGAATCTCAGCACTGCTATAGCCATCAATGTCGCGGCTCTGAAATAGATCTGATTAACACTTTTC
43242933 TCCACTCTCTCAATCATCTCCTCTTCCTTCAGACCGGACTTGCTAGTATTTTTGCTGATATGTAC
846 TCCACTCTCTCAATCATCTCCTCTTCCTTCAGACCGGACTTGCTAGTATTTTTGCTGATATGTAC
43242998 AACCGTGTCCCTCAATCGGTTAACTGCCCATGAGAGCCAAACTAGCCCAAAACCGATGCC
911 AACCGTGTCCCTCAATCGGTTAACTGCCCATGAGAGCCAAACTAGCCCAAAACCGATGCC
43243058 GGCGCTAAAG
Statistics
Matches: 970, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
970 970 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (970 bp):
TGAAAGCTAATATGTTAAGTTAAAATATTACATTATAGTAATTTGAATTAAAAAAATATAAAAAA
TTCAATAAAATGAAAGAATAAAACTGATCAAAATAAAGAAAAAGATAAAAAATATGATAAAATCA
AGATTACCCCTGAGTTTATATTATTTAAGAAAAAAAATGATAAATCTTTGCGAGCCAAAGTGAGA
ACATTATTTGGTATGTGCAAACTTTACCTTACATATATTTCAAAACCTTGAATAATCTTCACAAA
CTAAATGTGAGAAGGTTATGTTAGAAAATAAAATTACCGTTAAGAAATGCACTAAATTACGCTCC
CCTAGTTCATACAGGAGACAGACAGTTGACCCATTTTACAGTCAATTTTGTTATTTTATCCACTG
CACTGTCTTGTGCACACTGTTAGTTTCTGCAAAACAAATACCAATTTTAATAGTTACGAATAGCT
TGAAATGCCATGCCAAAATTGTAGTTATATATATATATATATGAAAGGTTTGTTCCTTTTGGCCC
TAAGGCAGTAGTAACCCTTCTCTTTGACACTGACCCTCTCCATTTACATGTTTACGATTGTTACA
CATACAGAAGCACCAGAGTATTAGATCCTTCTCATATGTGCTCTCAAGCCAATCATAGGACCCCC
CATGGATATAGCATAGAAGTCAGAGTTCCATTGTTGCCCTCAGAACCCCTCTCTGTTCTTCAGAT
ATTGACATCCCAGATCAATATAATTGAGTCTTAACTTTCGACTGTCACGATCTTCAGAGTTCACG
CGAATCTCAGCACTGCTATAGCCATCAATGTCGCGGCTCTGAAATAGATCTGATTAACACTTTTC
TCCACTCTCTCAATCATCTCCTCTTCCTTCAGACCGGACTTGCTAGTATTTTTGCTGATATGTAC
AACCGTGTCCCTCAATCGGTTAACTGCCCATGAGAGCCAAACTAGCCCAAAACCGATGCC
Found at i:43245733 original size:25 final size:25
Alignment explanation
Indices: 43245705--43245757 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
43245695 TAGAATAATA
* *
43245705 AATTTTATTATTATGTAGAATTTAT
1 AATTTTATTAATATGTAAAATTTAT
*
43245730 AATTTTTTTAATATGTAAAATTTAT
1 AATTTTATTAATATGTAAAATTTAT
43245755 AAT
1 AAT
43245758 CTTCATTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (25 bp):
AATTTTATTAATATGTAAAATTTAT
Found at i:43252262 original size:25 final size:26
Alignment explanation
Indices: 43252220--43252268 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
43252210 ATTATTATTA
*
43252220 AAAGTAAAGTAAATAG-AAAGAAAAT
1 AAAGTAAAGTAAAAAGAAAAGAAAAT
43252245 AAAGTAAAG-AACAAAGAAAAGAAA
1 AAAGTAAAGTAA-AAAGAAAAGAAA
43252269 CAGAATAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 12 0.57
26 7 0.33
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.10
Consensus pattern (26 bp):
AAAGTAAAGTAAAAAGAAAAGAAAAT
Found at i:43253809 original size:23 final size:23
Alignment explanation
Indices: 43253779--43253865 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
43253769 GCTTTACTGA
* *
43253779 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
43253802 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
43253823 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
43253845 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
43253866 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:43255230 original size:19 final size:19
Alignment explanation
Indices: 43255188--43255230 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
43255178 ATTATAATTA
43255188 AAAATAAAATATAATTTTT
1 AAAATAAAATATAATTTTT
* *
43255207 TAAATAAATTAATAA-TTTT
1 AAAATAAAAT-ATAATTTTT
43255226 AAAAT
1 AAAAT
43255231 TTATATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATAAAATATAATTTTT
Found at i:43256252 original size:4 final size:4
Alignment explanation
Indices: 43256243--43256277 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
43256233 TCTTTTTCTT
43256243 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
43256278 GTTTAATACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:43264949 original size:21 final size:21
Alignment explanation
Indices: 43264922--43264975 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
43264912 ACTTCTACTA
*
43264922 AAAAAAATTAAAATTATTTTTT
1 AAAAAAA-TAAAATTAATTTTT
*
43264944 TAAAAAATAAAATTAATTTTT
1 AAAAAAATAAAATTAATTTTT
*
43264965 AAAAAACTAAA
1 AAAAAAATAAA
43264976 TAGATGACGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAAAATAAAATTAATTTTT
Found at i:43265005 original size:29 final size:31
Alignment explanation
Indices: 43264973--43265034 Score: 92
Period size: 30 Copynumber: 2.0 Consensus size: 31
43264963 TTAAAAAACT
43264973 AAATAGA-TGACGAAAATAAAAAT-TTATTA
1 AAATAGAGTGACGAAAATAAAAATATTATTA
*
43265002 AAATTGAGTGACGAAAATAAAAATAATTATTA
1 AAATAGAGTGACGAAAATAAAAAT-ATTATTA
43265034 A
1 A
43265035 TAGCAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 6 0.21
30 16 0.55
32 7 0.24
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.27
Consensus pattern (31 bp):
AAATAGAGTGACGAAAATAAAAATATTATTA
Found at i:43265515 original size:21 final size:22
Alignment explanation
Indices: 43265486--43265536 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
43265476 GTCCGTATTT
43265486 AATTAATTTTTAAAAATTTAAA
1 AATTAATTTTTAAAAATTTAAA
**
43265508 AA-TAATTTTTAAATTTTTAAA
1 AATTAATTTTTAAAAATTTAAA
43265529 AATTAATT
1 AATTAATT
43265537 AAATGTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTAATTTTTAAAAATTTAAA
Found at i:43272252 original size:22 final size:23
Alignment explanation
Indices: 43272210--43272252 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
43272200 TTGATAATGT
*
43272210 TATTTTAAAATATATATTATCTA
1 TATTTTAAAATATATAATATCTA
43272233 TATTTATAAAA-A-ATAATATC
1 TATTT-TAAAATATATAATATC
43272253 AAAAAAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.39
23 6 0.33
24 5 0.28
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTTTAAAATATATAATATCTA
Found at i:43274678 original size:19 final size:17
Alignment explanation
Indices: 43274609--43274680 Score: 54
Period size: 19 Copynumber: 3.8 Consensus size: 17
43274599 GTCAATAGAT
* *
43274609 AATTTAAAAATTATAAAA
1 AATTCAAAAAATAT-AAA
*
43274627 ATATTCAAAAATAATATTCAA
1 A-ATTC-AAAA-AATA-TAAA
43274648 AATTCAAAAAATATAAA
1 AATTCAAAAAATATAAA
43274665 AATTCAGGAAAAATAT
1 AATTCA--AAAAATAT
43274681 TAGTATGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
17 9 0.20
18 5 0.11
19 15 0.34
20 8 0.18
21 6 0.14
22 1 0.02
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (17 bp):
AATTCAAAAAATATAAA
Found at i:43300535 original size:22 final size:22
Alignment explanation
Indices: 43300510--43300564 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
43300500 TTAATTTTAA
*
43300510 TATTATGTA-TACTATTATATTT
1 TATTATCTATTACTATTATA-TT
*
43300532 TATTA-CTATTATTATTATATT
1 TATTATCTATTACTATTATATT
*
43300553 TATTATTTATTA
1 TATTATCTATTA
43300565 GCATTAGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (22 bp):
TATTATCTATTACTATTATATT
Found at i:43300570 original size:22 final size:22
Alignment explanation
Indices: 43300523--43300582 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
43300513 TATGTATACT
* **
43300523 ATTATATTTTATTA-CTATTATT
1 ATTATA-TTTATTATTTATTAGC
43300545 ATTATATTTATTATTTATTAGC
1 ATTATATTTATTATTTATTAGC
43300567 ATTAGTA-TTATT-TTTA
1 ATTA-TATTTATTATTTA
43300583 CTTAATACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 11 0.33
22 20 0.61
23 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (22 bp):
ATTATATTTATTATTTATTAGC
Found at i:43300706 original size:35 final size:35
Alignment explanation
Indices: 43300655--43300752 Score: 91
Period size: 35 Copynumber: 2.9 Consensus size: 35
43300645 TTTTTCTTAA
*
43300655 TATT-ATATTATGTATATATATATATGTTTAATAT
1 TATTAATATTATATATATATATATATGTTTAATAT
* *
43300689 T-TTCAATATTATATATATAGTAT-TAT-TAATAGTAT
1 TATT-AATATTATATATATA-TATATATGT-TTAATAT
*
43300724 TATTAATATT-TTTA-ATATATATATGTTTA
1 TATTAATATTATATATATATATATATGTTTA
43300753 CGTATATATA
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
32 3 0.06
33 10 0.19
34 6 0.12
35 28 0.54
36 5 0.10
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (35 bp):
TATTAATATTATATATATATATATATGTTTAATAT
Found at i:43300722 original size:12 final size:12
Alignment explanation
Indices: 43300695--43300731 Score: 56
Period size: 12 Copynumber: 2.9 Consensus size: 12
43300685 ATATTTTCAA
43300695 TATTATATATATAG
1 TATTAT-TA-ATAG
43300709 TATTATTAATAG
1 TATTATTAATAG
43300721 TATTATTAATA
1 TATTATTAATA
43300732 TTTTTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 15 0.65
13 2 0.09
14 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (12 bp):
TATTATTAATAG
Found at i:43300944 original size:16 final size:14
Alignment explanation
Indices: 43300915--43300998 Score: 50
Period size: 14 Copynumber: 6.1 Consensus size: 14
43300905 TATATTATGT
43300915 TTTTTAATACTATA
1 TTTTTAATACTATA
*
43300929 TTTTTAATACCATA
1 TTTTTAATACTATA
* * *
43300943 TATATT-GT-GTATA
1 T-TTTTAATACTATA
*
43300956 TTCTTAATACTATA
1 TTTTTAATACTATA
* **
43300970 TATTGCATA-TAT-
1 TTTTTAATACTATA
43300982 TTTTTAATAACTATA
1 TTTTTAAT-ACTATA
43300997 TT
1 TT
43300999 ATGTATACAT
Statistics
Matches: 49, Mismatches: 15, Indels: 11
0.65 0.20 0.15
Matches are distributed among these distances:
12 8 0.16
13 9 0.18
14 27 0.55
15 5 0.10
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (14 bp):
TTTTTAATACTATA
Found at i:43300980 original size:25 final size:25
Alignment explanation
Indices: 43300925--43300997 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 25
43300915 TTTTTAATAC
**
43300925 TATATTTTTAATACCATATATATTGTG
1 TATATTTTTAATA-C-TATATATTGCA
*
43300952 TATATTCTTAATACTATATATTGCA
1 TATATTTTTAATACTATATATTGCA
43300977 TATATTTTTTAATAACTATAT
1 TATA-TTTTTAAT-ACTATAT
43300998 TATGTATACA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
25 13 0.32
26 8 0.20
27 19 0.47
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (25 bp):
TATATTTTTAATACTATATATTGCA
Found at i:43301005 original size:25 final size:24
Alignment explanation
Indices: 43300925--43301030 Score: 74
Period size: 27 Copynumber: 4.2 Consensus size: 24
43300915 TTTTTAATAC
*
43300925 TATA-TTTTTAATACCATATATATTG
1 TATATTTTTTAATACTATAT-TA-TG
* *
43300950 TGTATATTCTTAATACTATA-TATTG
1 TATAT-TTTTTAATACTATATTA-TG
43300975 CATATATTTTTTAATAACTATATTATG
1 --TATATTTTTTAAT-ACTATATTATG
**
43301002 TATACATTTTACATA-TATATTATG
1 TATATTTTTTA-ATACTATATTATG
43301026 TATAT
1 TATAT
43301031 ATATTTTTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
24 13 0.20
25 18 0.27
26 9 0.14
27 24 0.36
28 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.52
Consensus pattern (24 bp):
TATATTTTTTAATACTATATTATG
Found at i:43301052 original size:28 final size:27
Alignment explanation
Indices: 43301008--43301061 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
43300998 TATGTATACA
*
43301008 TTTTACATATATATTATGTATATATAT
1 TTTTACATATATATTATATATATATAT
43301035 TTTTAACAT-TATATT-TATATATATAT
1 TTTT-ACATATATATTATATATATATAT
43301061 T
1 T
43301062 ATGTATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 11 0.44
27 10 0.40
28 4 0.16
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (27 bp):
TTTTACATATATATTATATATATATAT
Found at i:43301197 original size:58 final size:59
Alignment explanation
Indices: 43301117--43301228 Score: 149
Period size: 58 Copynumber: 1.9 Consensus size: 59
43301107 ATCTCATGTA
* *
43301117 AATACTTTCAATACTATGTTATGCATATATTTTTGTCTATAT-TATATATATATACTTTT
1 AATACTTTCAATACTATATTATGAATATATTTTTG-CTATATGTATATATATATACTTTT
* *
43301176 AATAC-TT-AATACTATTATTATGAATATATTTTTGGTATATGTATGTATATATA
1 AATACTTTCAATACTA-TATTATGAATATATTTTTGCTATATGTATATATATATA
43301229 TATATTTTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 12 0.26
58 30 0.64
59 5 0.11
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (59 bp):
AATACTTTCAATACTATATTATGAATATATTTTTGCTATATGTATATATATATACTTTT
Found at i:43301346 original size:21 final size:23
Alignment explanation
Indices: 43301292--43301353 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
43301282 ATATTATTTT
* *
43301292 TATT-TTATGTACATACTTTTAA
1 TATTATTATGTATATATTTTTAA
*
43301314 TATTATTATGTATTTATTTTTAA
1 TATTATTATGTATATATTTTTAA
43301337 TA-TA-TATGTATATATTT
1 TATTATTATGTATATATTT
43301354 ATGTAGTATC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.34
22 6 0.17
23 17 0.49
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (23 bp):
TATTATTATGTATATATTTTTAA
Found at i:43301475 original size:22 final size:22
Alignment explanation
Indices: 43301420--43301475 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
43301410 ATTTTAATAC
*
43301420 TATATTATGTATACATTTTTTA
1 TATATTATATATACATTTTTTA
*
43301442 TATATTACATATATATATCTTTTTA
1 TATATT--ATATATACAT-TTTTTA
43301467 -ATATTATAT
1 TATATTATAT
43301476 TTTCATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 10 0.34
24 13 0.45
25 6 0.21
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (22 bp):
TATATTATATATACATTTTTTA
Found at i:43301608 original size:25 final size:25
Alignment explanation
Indices: 43301489--43301666 Score: 112
Period size: 25 Copynumber: 7.4 Consensus size: 25
43301479 CATATATGTC
*
43301489 ATGTATATATTTCTAATACTATATT
1 ATGTATATATTTTTAATACTATATT
* * *
43301514 A---CT-T-TTTTTACATATTATCTT
1 ATGTATATATTTTTA-ATACTATATT
43301535 ATGTATATATTTTTTAATAACTATATT
1 ATGTATATA-TTTTTAAT-ACTATATT
* **
43301562 ATGTATGTATTTTTAACGCTATATT
1 ATGTATATATTTTTAATACTATATT
*
43301587 ATGTACATATTTTTAATAC-----T
1 ATGTATATATTTTTAATACTATATT
* *
43301607 ATGTATATACTTTTTATTCCTATTATT
1 ATGTATATA-TTTTTAATACTA-TATT
*
43301634 ACGTATATA-TTTTAATAC-ATA-T
1 ATGTATATATTTTTAATACTATATT
*
43301656 ATGCATATATT
1 ATGTATATATT
43301667 CATATATCGT
Statistics
Matches: 115, Mismatches: 22, Indels: 34
0.67 0.13 0.20
Matches are distributed among these distances:
20 14 0.12
21 18 0.16
22 9 0.08
23 3 0.03
24 2 0.02
25 31 0.27
26 9 0.08
27 29 0.25
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (25 bp):
ATGTATATATTTTTAATACTATATT
Found at i:43305125 original size:18 final size:18
Alignment explanation
Indices: 43305080--43305125 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
43305070 GATGGGAATG
* *
43305080 GGCATAGACACCGGCACC
1 GGCATAGACACAGGCACA
* *
43305098 GGCGTCGACACAGGCACA
1 GGCATAGACACAGGCACA
43305116 GGCATAGACA
1 GGCATAGACA
43305126 TGGGAGTCAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.33, G:0.30, T:0.07
Consensus pattern (18 bp):
GGCATAGACACAGGCACA
Found at i:43307483 original size:20 final size:20
Alignment explanation
Indices: 43307458--43307495 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43307448 TTGTTATTTT
* *
43307458 TTGAAAGTTGAGTGACTGAA
1 TTGAAAGATAAGTGACTGAA
43307478 TTGAAAGATAAGTGACTG
1 TTGAAAGATAAGTGACTG
43307496 TTTTGTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.05, G:0.29, T:0.29
Consensus pattern (20 bp):
TTGAAAGATAAGTGACTGAA
Found at i:43310182 original size:15 final size:16
Alignment explanation
Indices: 43310164--43310196 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
43310154 AACTTCAAAA
43310164 TTTTTAAAAATT-TAT
1 TTTTTAAAAATTATAT
43310179 TTTTTAAAAATTATAT
1 TTTTTAAAAATTATAT
43310195 TT
1 TT
43310197 AATTGATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTTAAAAATTATAT
Found at i:43320074 original size:16 final size:16
Alignment explanation
Indices: 43320053--43320084 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
43320043 TTTAATGAAT
43320053 TTCTTGTATTCTACAA
1 TTCTTGTATTCTACAA
43320069 TTCTTGTATTCTACAA
1 TTCTTGTATTCTACAA
43320085 CTCCTAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (16 bp):
TTCTTGTATTCTACAA
Found at i:43331531 original size:30 final size:32
Alignment explanation
Indices: 43331479--43331541 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
43331469 AGCCTATATC
*
43331479 TTTATAATTTTTGAAGGATTAAA-T-CAATTT
1 TTTATAATTTTAGAAGGATTAAAGTACAATTT
*
43331509 TTTATCAATTTTAGGAGG-TTAAAGTACAATTT
1 TTTAT-AATTTTAGAAGGATTAAAGTACAATTT
43331541 T
1 T
43331542 ACCTTTACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 10 0.36
31 11 0.39
32 7 0.25
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.48
Consensus pattern (32 bp):
TTTATAATTTTAGAAGGATTAAAGTACAATTT
Found at i:43332581 original size:16 final size:19
Alignment explanation
Indices: 43332532--43332587 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
43332522 TTTTGTCATA
43332532 TAATAAATTATTAATATAAT
1 TAATAAATTATTAATAT-AT
43332552 TAATATAATGTATT-AT-T-T
1 TAATA-AAT-TATTAATATAT
43332570 TAATAAATTATTTAATAT
1 TAATAAATTA-TTAATAT
43332588 TTCAAATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
16 2 0.06
17 5 0.16
18 8 0.26
19 1 0.03
20 6 0.19
21 5 0.16
22 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TAATAAATTATTAATATAT
Found at i:43332677 original size:15 final size:15
Alignment explanation
Indices: 43332657--43332714 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
43332647 ATTCAATATT
43332657 AATATTTTAATAATA
1 AATATTTTAATAATA
*
43332672 AATATTTATTACAATTATAA
1 AATA-TT-TT--AATAAT-A
*
43332692 AATATATTAATAATA
1 AATATTTTAATAATA
43332707 AATATTTT
1 AATATTTT
43332715 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
15 12 0.35
16 7 0.21
17 2 0.06
18 2 0.06
19 6 0.18
20 5 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:43333083 original size:32 final size:33
Alignment explanation
Indices: 43333045--43333116 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
43333035 CAACTTTATG
*
43333045 AAATATTTT-TA-AGAAACTTATCAAACAACAGA
1 AAATATTTTATACAGAAACATA-CAAACAACAGA
** *
43333077 AAATATTTTATACAGATTCATACAAACACCAGA
1 AAATATTTTATACAGAAACATACAAACAACAGA
43333110 AAATATT
1 AAATATT
43333117 GACTTTTCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 9 0.26
33 19 0.56
34 6 0.18
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (33 bp):
AAATATTTTATACAGAAACATACAAACAACAGA
Found at i:43338264 original size:33 final size:32
Alignment explanation
Indices: 43338227--43338333 Score: 92
Period size: 33 Copynumber: 3.2 Consensus size: 32
43338217 CCAATAACAC
*
43338227 TTTTCTTCTTCAACTTCATCTTCTACAACACCA
1 TTTTCTTC-TCAACTTCATCTTCTACAACATCA
* *
43338260 TTTTCTTCAT-AATCTAT-ATCTTCTAAAATATCA
1 TTTTCTTC-TCAA-CT-TCATCTTCTACAACATCA
*
43338293 TTTTCTTCACAAAGTACTTCATCTTCTACAACATCA
1 TTTTCTTCTC--A--ACTTCATCTTCTACAACATCA
43338329 TTTTC
1 TTTTC
43338334 ATCCTGTACA
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
32 2 0.03
33 32 0.54
34 1 0.02
35 2 0.03
36 21 0.36
37 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.01, T:0.45
Consensus pattern (32 bp):
TTTTCTTCTCAACTTCATCTTCTACAACATCA
Found at i:43338329 original size:36 final size:34
Alignment explanation
Indices: 43338239--43338333 Score: 113
Period size: 33 Copynumber: 2.8 Consensus size: 34
43338229 TTCTTCTTCA
* *
43338239 ACTTCATCTTCTACAACACCATTTTCTTCATAAT
1 ACTTCATCTTCTACAACATCATTTTCTTCAAAAT
* *
43338273 -CTAT-ATCTTCTAAAATATCATTTTCTTCACAAAGT
1 ACT-TCATCTTCTACAACATCATTTTCTTCA-AAA-T
43338308 ACTTCATCTTCTACAACATCATTTTC
1 ACTTCATCTTCTACAACATCATTTTC
43338334 ATCCTGTACA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
33 24 0.48
34 3 0.06
35 2 0.04
36 21 0.42
ACGTcount: A:0.31, C:0.26, G:0.01, T:0.42
Consensus pattern (34 bp):
ACTTCATCTTCTACAACATCATTTTCTTCAAAAT
Found at i:43338334 original size:21 final size:21
Alignment explanation
Indices: 43338310--43338354 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
43338300 CACAAAGTAC
* *
43338310 TTCATCTTCTACAACATCATT
1 TTCATCCTCTACAACACCATT
*
43338331 TTCATCCTGTACAACACCATT
1 TTCATCCTCTACAACACCATT
43338352 TTC
1 TTC
43338355 TCCATAAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.31, G:0.02, T:0.40
Consensus pattern (21 bp):
TTCATCCTCTACAACACCATT
Found at i:43338376 original size:21 final size:21
Alignment explanation
Indices: 43338352--43338435 Score: 72
Period size: 18 Copynumber: 4.3 Consensus size: 21
43338342 CAACACCATT
*
43338352 TTCTCCATAAAGTACTTCATC
1 TTCTTCATAAAGTACTTCATC
* * *
43338373 TTCTTC-TACA--ACATCATT
1 TTCTTCATAAAGTACTTCATC
*
43338391 TTCTTCATAAAGTACTTCACC
1 TTCTTCATAAAGTACTTCATC
*
43338412 TTCTTCA-ACA--ACTTCATC
1 TTCTTCATAAAGTACTTCATC
43338430 TTCTTC
1 TTCTTC
43338436 GGTTACCTCT
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
18 25 0.50
19 3 0.06
20 5 0.10
21 17 0.34
ACGTcount: A:0.26, C:0.30, G:0.02, T:0.42
Consensus pattern (21 bp):
TTCTTCATAAAGTACTTCATC
Found at i:43338384 original size:39 final size:39
Alignment explanation
Indices: 43338340--43338423 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
43338330 TTTCATCCTG
*
43338340 TACAACACCATTTTCTCCATAAAGTACTTCATCTTCTTC
1 TACAACACCATTTTCTCCATAAAGTACTTCACCTTCTTC
* *
43338379 TACAACATCATTTTCTTCATAAAGTACTTCACCTTCTTC
1 TACAACACCATTTTCTCCATAAAGTACTTCACCTTCTTC
*
43338418 AACAAC
1 TACAAC
43338424 TTCATCTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.31, C:0.30, G:0.02, T:0.37
Consensus pattern (39 bp):
TACAACACCATTTTCTCCATAAAGTACTTCACCTTCTTC
Found at i:43338434 original size:39 final size:39
Alignment explanation
Indices: 43338341--43338435 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 39
43338331 TTCATCCTGT
* * * * *
43338341 ACAACACCATTTTCTCCATAAAGTACTTCATCTTCTTCT
1 ACAACATCATCTTCTTCATAAAGTACTTCACCTTCTTCA
*
43338380 ACAACATCATTTTCTTCATAAAGTACTTCACCTTCTTCA
1 ACAACATCATCTTCTTCATAAAGTACTTCACCTTCTTCA
*
43338419 ACAACTTCATCTTCTTC
1 ACAACATCATCTTCTTC
43338436 GGTTACCTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.28, C:0.31, G:0.02, T:0.39
Consensus pattern (39 bp):
ACAACATCATCTTCTTCATAAAGTACTTCACCTTCTTCA
Found at i:43346088 original size:5 final size:5
Alignment explanation
Indices: 43346078--43346110 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
43346068 TTAACATATC
43346078 CCCCT CCCCT CCCCT CCCCT CCCCT CCCCT CCC
1 CCCCT CCCCT CCCCT CCCCT CCCCT CCCCT CCC
43346111 TCCAACCAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.82, G:0.00, T:0.18
Consensus pattern (5 bp):
CCCCT
Found at i:43347328 original size:14 final size:14
Alignment explanation
Indices: 43347309--43347338 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43347299 TTAAACCGAG
43347309 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
43347323 ACCAATCCAATTCA
1 ACCAATCCAAATCA
43347337 AC
1 AC
43347339 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:43348852 original size:20 final size:21
Alignment explanation
Indices: 43348827--43348872 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
43348817 CTTAACATTC
*
43348827 ATTTTTTTAATT-TTTT-ATA
1 ATTTTTTGAATTATTTTGATA
43348846 TATTTTTTGAATTATTTTGATA
1 -ATTTTTTGAATTATTTTGATA
43348868 ATTTT
1 ATTTT
43348873 ACTTTGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 11 0.48
21 9 0.39
22 3 0.13
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (21 bp):
ATTTTTTGAATTATTTTGATA
Found at i:43351041 original size:54 final size:54
Alignment explanation
Indices: 43350965--43351160 Score: 243
Period size: 54 Copynumber: 3.5 Consensus size: 54
43350955 TTGTTACAGT
*
43350965 GGGATTACCAGTCCAGGCTAAATCCCCTATAATATAAACTTATAGAGTATTGTC
1 GGGATTACCAATCCAGGCTAAATCCCCTATAATATAAACTTATAGAGTATTGTC
* * * *
43351019 GGGATTACCAATCCAGGCTAAATCCCCTACAACGACAATTACTCTA-ATGAGCT-TGGATC
1 GGGATTACCAATCCAGGCTAAATCCCCTATAA-TATAA--ACT-TATA-GAG-TATTG-TC
** *
43351078 TAGATTACCAGTCCAGGCTAAATCCCCTATAATATAAACTTATAGAGTATTGTC
1 GGGATTACCAATCCAGGCTAAATCCCCTATAATATAAACTTATAGAGTATTGTC
43351132 GGGATTACCAATCCAGGCTAAATCCCCTA
1 GGGATTACCAATCCAGGCTAAATCCCCTA
43351161 CAACGACAAT
Statistics
Matches: 118, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
54 59 0.50
55 10 0.08
56 4 0.03
57 4 0.03
58 10 0.08
59 31 0.26
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (54 bp):
GGGATTACCAATCCAGGCTAAATCCCCTATAATATAAACTTATAGAGTATTGTC
Found at i:43351098 original size:59 final size:59
Alignment explanation
Indices: 43351021--43351213 Score: 247
Period size: 59 Copynumber: 3.4 Consensus size: 59
43351011 GTATTGTCGG
43351021 GATTACCAATCCAGGCTAAATCCCCTACAACGACAATTACTCTAATGAGCTTGGATCTA
1 GATTACCAATCCAGGCTAAATCCCCTACAACGACAATTACTCTAATGAGCTTGGATCTA
* * * * * **
43351080 GATTACCAGTCCAGGCTAAATCCCCTATAA-TATAA--ACT-T-ATAGAG-TATTG-TCGG
1 GATTACCAATCCAGGCTAAATCCCCTACAACGACAATTACTCTAAT-GAGCT-TGGATCTA
43351134 GATTACCAATCCAGGCTAAATCCCCTACAACGACAATTACTCTAATGAGCTTGGATCTA
1 GATTACCAATCCAGGCTAAATCCCCTACAACGACAATTACTCTAATGAGCTTGGATCTA
*
43351193 GATTACCAGTCCAGGCTAAAT
1 GATTACCAATCCAGGCTAAAT
43351214 TCAGACCCTA
Statistics
Matches: 110, Mismatches: 15, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
54 33 0.30
55 9 0.08
56 3 0.03
57 3 0.03
58 9 0.08
59 53 0.48
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (59 bp):
GATTACCAATCCAGGCTAAATCCCCTACAACGACAATTACTCTAATGAGCTTGGATCTA
Found at i:43351165 original size:113 final size:113
Alignment explanation
Indices: 43350967--43351213 Score: 494
Period size: 113 Copynumber: 2.2 Consensus size: 113
43350957 GTTACAGTGG
43350967 GATTACCAGTCCAGGCTAAATCCCCTATAATATAAACTTATAGAGTATTGTCGGGATTACCAATC
1 GATTACCAGTCCAGGCTAAATCCCCTATAATATAAACTTATAGAGTATTGTCGGGATTACCAATC
43351032 CAGGCTAAATCCCCTACAACGACAATTACTCTAATGAGCTTGGATCTA
66 CAGGCTAAATCCCCTACAACGACAATTACTCTAATGAGCTTGGATCTA
43351080 GATTACCAGTCCAGGCTAAATCCCCTATAATATAAACTTATAGAGTATTGTCGGGATTACCAATC
1 GATTACCAGTCCAGGCTAAATCCCCTATAATATAAACTTATAGAGTATTGTCGGGATTACCAATC
43351145 CAGGCTAAATCCCCTACAACGACAATTACTCTAATGAGCTTGGATCTA
66 CAGGCTAAATCCCCTACAACGACAATTACTCTAATGAGCTTGGATCTA
43351193 GATTACCAGTCCAGGCTAAAT
1 GATTACCAGTCCAGGCTAAAT
43351214 TCAGACCCTA
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 134 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (113 bp):
GATTACCAGTCCAGGCTAAATCCCCTATAATATAAACTTATAGAGTATTGTCGGGATTACCAATC
CAGGCTAAATCCCCTACAACGACAATTACTCTAATGAGCTTGGATCTA
Found at i:43360984 original size:22 final size:22
Alignment explanation
Indices: 43360941--43360984 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
43360931 TATAAAAATA
* *
43360941 AATTTATTTTAGTCATTCATTT
1 AATTTATTTTAATCATTAATTT
* *
43360963 AATTTTTTTTAATCCTTAATTT
1 AATTTATTTTAATCATTAATTT
43360985 TACGTTGTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.61
Consensus pattern (22 bp):
AATTTATTTTAATCATTAATTT
Found at i:43361337 original size:12 final size:12
Alignment explanation
Indices: 43361320--43361344 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43361310 TTTTCTTTAA
43361320 TTTTGTTTTTTT
1 TTTTGTTTTTTT
43361332 TTTTGTTTTTTT
1 TTTTGTTTTTTT
43361344 T
1 T
43361345 AAATCTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTGTTTTTTT
Found at i:43361498 original size:23 final size:22
Alignment explanation
Indices: 43361472--43361516 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
43361462 AAAATTTTAA
**
43361472 ATGTAAATTTTATTAAAATATAT
1 ATGTAAACATTATTAAAA-ATAT
*
43361495 ATGTAGACATTATTAAAAATAT
1 ATGTAAACATTATTAAAAATAT
43361517 TTATTACATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (22 bp):
ATGTAAACATTATTAAAAATAT
Found at i:43366518 original size:17 final size:17
Alignment explanation
Indices: 43366496--43366533 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
43366486 CGAAATACAT
*
43366496 AATATACAATAATTTAA
1 AATATAAAATAATTTAA
*
43366513 AATATAAAATAATTTGA
1 AATATAAAATAATTTAA
43366530 AATA
1 AATA
43366534 AATATATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (17 bp):
AATATAAAATAATTTAA
Found at i:43367266 original size:20 final size:19
Alignment explanation
Indices: 43367228--43367266 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
43367218 CTTTGCTTAT
43367228 GAAATGAATCCCACCATCA
1 GAAATGAATCCCACCATCA
* *
43367247 GAAATTAATGCCATCCATCA
1 GAAATGAATCCCA-CCATCA
43367267 TTGCATAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.41, C:0.28, G:0.10, T:0.21
Consensus pattern (19 bp):
GAAATGAATCCCACCATCA
Found at i:43371357 original size:4 final size:4
Alignment explanation
Indices: 43371348--43371379 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
43371338 GTTGCCTTGT
43371348 CTCA CTCA CTCA CTCA CTCA CTCA CTCA CTCA
1 CTCA CTCA CTCA CTCA CTCA CTCA CTCA CTCA
43371380 TCCTAGTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (4 bp):
CTCA
Found at i:43373308 original size:80 final size:82
Alignment explanation
Indices: 43373175--43373336 Score: 238
Period size: 80 Copynumber: 2.0 Consensus size: 82
43373165 TTTAAATAGG
* * * * * *
43373175 GAATAAATTATATTCGGATGATCTTAAAAAGTATAGTTTTTATGCACCAATAAAATAGTGCCACA
1 GAATAAATTATATTAGGATGATCCTAAAAAGAATAGTTTTTACGAACCAATAAAATAATGCCACA
43373240 TCATTAAAATTTAAAGA
66 TCATTAAAATTTAAAGA
* *
43373257 GAATAAATTCTATTAGGATTATCCTAAAAA-AATA-TTTTTACGAACCAATAAAATAATGCCACA
1 GAATAAATTATATTAGGATGATCCTAAAAAGAATAGTTTTTACGAACCAATAAAATAATGCCACA
43373320 TCATTAAAATTTAAAGA
66 TCATTAAAATTTAAAGA
43373337 TAAAAAAGTA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 43 0.60
81 3 0.04
82 26 0.36
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (82 bp):
GAATAAATTATATTAGGATGATCCTAAAAAGAATAGTTTTTACGAACCAATAAAATAATGCCACA
TCATTAAAATTTAAAGA
Found at i:43379614 original size:15 final size:16
Alignment explanation
Indices: 43379594--43379623 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43379584 TCGAAATTAG
43379594 AAATTATAA-ATTTTT
1 AAATTATAATATTTTT
43379609 AAATTATAATATTTT
1 AAATTATAATATTTT
43379624 GCGAAATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATTATAATATTTTT
Found at i:43387547 original size:14 final size:14
Alignment explanation
Indices: 43387526--43387559 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
43387516 AACATATTCT
43387526 TTTAATATT-TATA
1 TTTAATATTATATA
43387539 TTATAATATTATATA
1 TT-TAATATTATATA
43387554 TTTAAT
1 TTTAAT
43387560 TTTCATAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 11 0.58
15 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTAATATTATATA
Found at i:43389732 original size:18 final size:19
Alignment explanation
Indices: 43389697--43389732 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
43389687 AAAATTACGA
43389697 AAAATTCTAAATATTTATG
1 AAAATTCTAAATATTTATG
43389716 AAAATTCTAAA-ATTTAT
1 AAAATTCTAAATATTTAT
43389733 TTATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (19 bp):
AAAATTCTAAATATTTATG
Found at i:43393373 original size:31 final size:30
Alignment explanation
Indices: 43393337--43393405 Score: 102
Period size: 31 Copynumber: 2.3 Consensus size: 30
43393327 GATTAAATTA
*
43393337 AAATTAAAGTTTCAAGTATACATTTGAACC
1 AAATTAAAGTTTCAAGTATACAATTGAACC
* *
43393367 ATAATTAAAGTTTCAAGTATATAATTGCACC
1 A-AATTAAAGTTTCAAGTATACAATTGAACC
43393398 AAATTAAA
1 AAATTAAA
43393406 ATTCATGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 8 0.23
31 27 0.77
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATACAATTGAACC
Found at i:43393442 original size:31 final size:29
Alignment explanation
Indices: 43393386--43393444 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
43393376 GTTTCAAGTA
*
43393386 TATAATTGCACCAAATTAAAATTCATGTG
1 TATAATTGCACCAAATCAAAATTCATGTG
* *
43393415 TATAATTGCACATTAAATCAAAGTTCATGT
1 TATAATTGCAC--CAAATCAAAATTCATGT
43393445 ATAATTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.44
31 14 0.56
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.36
Consensus pattern (29 bp):
TATAATTGCACCAAATCAAAATTCATGTG
Done.